\documentclass[11pt]{book}   	% use "amsart" instead of "article" for AMSLaTeX format
\usepackage{geometry}                		% See geometry.pdf to learn the layout options.
\geometry{a4paper}                   		% ... or a4paper or a5paper or ... 
\geometry{margin=1.5in} % for example, change the margins to 2 inches all round
\usepackage[parfill]{parskip}    		% Activate to begin paragraphs with an empty line rather than an indent
\usepackage{graphicx}				% Use pdf, png, jpg, or eps with pdflatex; use eps in DVI mode
								% TeX will automatically convert eps --> pdf in pdflatex	
\usepackage{amsmath,amssymb}  % Better maths support & more symbols

%%% PACKAGES
\usepackage{booktabs} % for much better looking tables
\usepackage{array} % for better arrays (eg matrices) in maths
\usepackage{paralist} % very flexible & customisable lists (eg. enumerate/itemize, etc.)
\usepackage{verbatim} % adds environment for commenting out blocks of text & for better verbatim
\usepackage{subfigure} % make it possible to include more than one captioned figure/table in a single float
% These packages are all incorporated in the memoir class to one degree or another...

%%% HEADERS & FOOTERS
\usepackage{fancyhdr} % This should be set AFTER setting up the page geometry
\pagestyle{fancy} % options: empty , plain , fancy
\renewcommand{\headrulewidth}{0pt} % customise the layout...
\lhead{}\chead{}\rhead{}
\lfoot{}\cfoot{\thepage}\rfoot{}

%%% SECTION TITLE APPEARANCE
\usepackage{sectsty}
\allsectionsfont{\sffamily\mdseries\upshape} % (See the fntguide.pdf for font help)
% (This matches ConTeXt defaults)

%%% ToC APPEARANCE
\usepackage[nottoc,notlof,notlot]{tocbibind} % Put the bibliography in the ToC
%\usepackage[titles]{tocloft} % Alter the style of the Table of Contents
%\renewcommand{\cftsecfont}{\rmfamily\mdseries\upshape}
%\renewcommand{\cftsecpagefont}{\rmfamily\mdseries\upshape} % No bold!

%% LaTeX Preamble - Common packages

\usepackage[utf8]{inputenc} % Any characters can be typed directly from the keyboard, eg éçñ
\usepackage{textcomp} % provide lots of new symbols
\usepackage{flafter}  % Don't place floats before their definition
%\usepackage{topcapt}   % Define \topcation for placing captions above tables (not in gwTeX)
%\usepackage{natbib} % use author/date bibliographic citations
\usepackage{bm}  % Define \bm{} to use bold math fonts
\usepackage{pdfsync}  % enable tex source and pdf output syncronicity

\usepackage{listings}
\lstset{ 
        language=C++,                                % choose the language of the code
%       basicstyle=10pt,                                % the size of the fonts that are used for the code
        numbers=left,                                   % where to put the line-numbers
        numberstyle=\footnotesize,                      % the size of the fonts that are used for the line-numbers
        stepnumber=1,                                           % the step between two line-numbers. If it's 1 each line will be numbered
        numbersep=5pt,                                  % how far the line-numbers are from the code
%       backgroundcolor=\color{white},          % choose the background color. You must add \usepackage{color}
        showspaces=false,                               % show spaces adding particular underscores
        showstringspaces=false,                         % underline spaces within strings
        showtabs=false,                                         % show tabs within strings adding particular underscores
%       frame=single,                                           % adds a frame around the code
%       tabsize=2,                                              % sets default tabsize to 2 spaces
%       captionpos=b,                                           % sets the caption-position to bottom
        breaklines=true,                                        % sets automatic line breaking
        breakatwhitespace=false,                        % sets if automatic breaks should only happen at whitespace
        escapeinside={\%*}{*)}                          % if you want to add a comment within your code
}

\title{Optimization of matrix multiplication in relation to Markov Clustering in Bioinformatics}
\author{Andreas Bok Andersen}
%\date{}							% Activate to display a given date or no %date

\begin{document}
\maketitle
\tableofcontents* % the asterisk means that the contents itself isn't put into the ToC

% Idag: Exp setup

%\include{Introduction}
%
%\include{HMM}
%
%\include{consumers}
%
%\include{individualloads}
%
%\include{combinedloads}
%
%\include{SysSetup}

%\include{Results}
\bibliographystyle{ieeetran}
\bibliography{BibDeskThesis}
\end{document}  



